In this article we present a detailed structural investigation of novel polycyclic pentacyclo[5.4.1.02,6.03,10.05,9]undecane and adamantane propargylamine hybrid molecules. The structural characterization of these compounds was performed using MS, FT-IR and NMR spectroscopy in combination with X-ray diffraction analysis. The single crystal X-ray analyses of four synthons (6, 8–10) are presented; 8-(N)-propargylamino-8,11-oxapentacyclo-[5.4.1.02,6.03,10.05.9]undecane (compound 6 crystallized in the monoclinic system, unit cell parameters: a = 20.737(2) A; b = 8.127(1) A; c = 12.606 (1) A; β = 92.360(2)°; V = 2122.8(3) A3; Z = 8); 11-hydroxy-(N)-propargyl-8,11-azapentacyclo[5.4.1.02,6.03,10.05.9]undecane (compound 8 crystallized in the monoclinic system, unit cell parameters: a = 7.9624(6) A; b = 14.9332(6) A; c = 9.6162(7) A; β = 109.029(3); V = 1080.9(2) A3; Z = 4); 1-methyl-11-hydroxy-(N)-propargyl-8,11-azapentacyclo[5.4.1.02,6.03,10.05.9]undecane (compound 9 crystallized in the monoclinic system, unit cell parameters: a = 7.732(1) A; b = 15.148(2) A; c = 9.864(1) A; β = 101.728(3)°; V = 1131.3 (2) A3; Z = 4); and an adamantane derivative, N,N-dipropargyl-adamantan-1-amine (compound 10 crystallized in the orthorhombic system, unit cell parameters: a = 34.098(4) A; b = 6.825(1) A; c = 10.979(1) A; V = 2555.0(5) A3; Z = 8). From the X-ray analyses it is clear that the polycyclic structures had different modes of intermolecular interaction and molecular stacking. Compound 9 exhibited a cis configuration between the OH and CH3 moieties as expected in view of potential steric hindrance and the electron density effects of the methyl moiety on the initial amination reaction. These hybrid molecules exhibited significant anti-apoptotic activity and could thus find application as neuroprotective agents. A series of pentacyclo[5.4.1.02,6.03,10.05,9]undecane- and adamantane-propargylamines were synthesized and characterized by high-resolution MS, FT-IR, 1H-NMR and 13C-NMR spectroscopy and single-crystal X-ray diffraction. These compounds showed promising neuroprotective ability.